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BioC 3.3: CHECK report for bioassayR on windows2.bioconductor.org

This page was generated on 2015-10-27 12:15:24 -0400 (Tue, 27 Oct 2015).

Package 92/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
bioassayR 1.9.0
Tyler Backman
Snapshot Date: 2015-10-26 20:20:04 -0400 (Mon, 26 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/bioassayR
Last Changed Rev: 109592 / Revision: 109948
Last Changed Date: 2015-10-13 15:59:53 -0400 (Tue, 13 Oct 2015)
linux2.bioconductor.org Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
windows2.bioconductor.org Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository

Summary

Package: bioassayR
Version: 1.9.0
Command: rm -rf bioassayR.buildbin-libdir bioassayR.Rcheck && mkdir bioassayR.buildbin-libdir bioassayR.Rcheck && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=bioassayR.buildbin-libdir bioassayR_1.9.0.tar.gz >bioassayR.Rcheck\00install.out 2>&1 && cp bioassayR.Rcheck\00install.out bioassayR-install.out && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=bioassayR.buildbin-libdir --install="check:bioassayR-install.out" --force-multiarch --no-vignettes --timings bioassayR_1.9.0.tar.gz
StartedAt: 2015-10-27 00:50:10 -0400 (Tue, 27 Oct 2015)
EndedAt: 2015-10-27 00:51:24 -0400 (Tue, 27 Oct 2015)
EllapsedTime: 74.3 seconds
RetCode: 0
Status:  OK  
CheckDir: bioassayR.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf bioassayR.buildbin-libdir bioassayR.Rcheck && mkdir bioassayR.buildbin-libdir bioassayR.Rcheck && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=bioassayR.buildbin-libdir bioassayR_1.9.0.tar.gz >bioassayR.Rcheck\00install.out 2>&1 && cp bioassayR.Rcheck\00install.out bioassayR-install.out  && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=bioassayR.buildbin-libdir --install="check:bioassayR-install.out" --force-multiarch --no-vignettes --timings bioassayR_1.9.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'c:/biocbld/bbs-3.3-bioc/meat/bioassayR.Rcheck'
* using R Under development (unstable) (2015-09-22 r69418)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'bioassayR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'bioassayR' version '1.9.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'bioassayR' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
** checking loading without being on the library search path ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
** checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [3s] OK
** running examples for arch 'x64' ... [3s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

bioassayR.Rcheck/00install.out:


install for i386

* installing *source* package 'bioassayR' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'bioassayR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'bioassayR' as bioassayR_1.9.0.zip
* DONE (bioassayR)

bioassayR.Rcheck/examples_i386/bioassayR-Ex.timings:

nameusersystemelapsed
BioAssayDB-class000
activeAgainst0.000.010.02
activeTargets000
addBioassayIndex0.000.020.02
addDataSource0.000.010.01
allCids0.010.000.02
allTargets000
assaySetTargets0.040.000.03
bioassay-class0.000.020.01
bioassaySet-class000
connectBioassayDB0.000.010.02
disconnectBioassayDB0.010.000.02
dropBioassay0.030.000.03
dropBioassayIndex0.020.000.01
getAssay0.010.000.02
getAssays0.020.000.01
getBioassaySetByCids0.480.000.49
inactiveTargets000
loadBioassay0.040.000.03
loadIdMapping000
newBioassayDB000
parsePubChemBioassay0.020.000.02
perTargetMatrix0.030.000.03
queryBioassayDB0.010.020.03
samplebioassay000
screenedAtLeast0.020.000.02
selectiveAgainst0.090.000.09
targetSelectivity0.020.000.02
translateTargetId0.010.000.01

bioassayR.Rcheck/examples_x64/bioassayR-Ex.timings:

nameusersystemelapsed
BioAssayDB-class000
activeAgainst0.010.000.02
activeTargets0.020.000.02
addBioassayIndex0.010.000.01
addDataSource0.020.000.02
allCids000
allTargets0.000.010.01
assaySetTargets0.030.000.03
bioassay-class0.020.000.02
bioassaySet-class000
connectBioassayDB0.000.020.02
disconnectBioassayDB0.000.020.01
dropBioassay0.030.010.05
dropBioassayIndex0.020.020.03
getAssay0.010.000.02
getAssays0.020.000.02
getBioassaySetByCids0.360.010.39
inactiveTargets0.010.000.01
loadBioassay0.050.000.05
loadIdMapping0.020.000.01
newBioassayDB0.010.000.02
parsePubChemBioassay0.020.000.02
perTargetMatrix0.050.000.04
queryBioassayDB0.040.020.07
samplebioassay000
screenedAtLeast000
selectiveAgainst0.170.010.19
targetSelectivity0.030.000.03
translateTargetId0.020.000.02